title: Code generator for distributed parameter biological model simulation with PDE numerical schemes.
abstract: The physiological simulation at the tissue and organ level typically involves the handling of partial differential equations (PDEs). Boundary conditions and in cases like pharmacokinetics, distributed parameters add to the complexity of the PDE solution. These factors make most PDE solutions and their corresponding program codes tailored for specific problems. We propose a general approach for handling PDEs in computational models using a replacement scheme for discretization. This method allows for the handling of the different PDE types. The replacement scheme involves substituting all the partial differential terms with the numerical solution equations. Once the model equations are discretized with the numerical solution scheme, instances of the equations are generated to undergo dependency analysis. The result of the dependency analysis is then used to determine the simulation loop structure and generate the program code.
authors.forename: Florencio Rusty
authors.initials: FR
authors.lastname: Punzalan
authors.forename: Yoshiharu
authors.initials: Y
authors.lastname: Yamashita
authors.forename: Masanari
authors.initials: M
authors.lastname: Kawabata
authors.forename: Takao
authors.initials: T
authors.lastname: Shimayoshi
authors.forename: Hiroaki
authors.initials: H
authors.lastname: Kuwabara
authors.forename: Yoshitoshi
authors.initials: Y
authors.lastname: Kunieda
authors.forename: Akira
authors.initials: A
authors.lastname: Amano
mesh_terms: D000200:Action Potentials / Q000502:physiology; D003198:Computer Simulation; D006321:Heart / Q000033:anatomy & histology / Q000502:physiology; D006801:Humans; D008954:Models, Biological; D013997:Time Factors